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• • Neelam Jha@neelam

  

  Comment on "Conda command to install checkV"

  More at https://bitbucket.org/berkeleylab/checkv/src/master/

  651 days ago

• • Neelam Jha@neelam

  

  Comment on "CheckM:Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes"

  MOre at https://bitbucket.org/berkeleylab/checkv/src/master/

  651 days ago

• • Jit@jit.aber

  

  Comment on "Tools to detect synteny blocks regions among multiple genomes"

  ...algorithm using C++. https://phys.org/news/2020-06-scientists-synteny-blocks-animals.html https://github.com/ComparativeGenomicsToolkit/hal/tree/master/synteny

  1427 days ago

• • Jit@jit.aber

  

  Comment on "Tools to detect synteny blocks regions among multiple genomes"

  ...whole-genome alignments https://academic.oup.com/gigascience/article/9/6/giaa047/5848161 https://github.com/ComparativeGenomicsToolkit/hal/tree/master/synteny...

  1446 days ago

• • Rahul Nayak@rahul

  

  Comment on "Bioinformatics tools developed for Oxford Nanopore data analysis !"

  Basic commands for genome assembly https://raw.githubusercontent.com/rrwick/Long-read-assembler-comparison/master/supplementary_figures/Fig_S04_commands.png

  1565 days ago

• • Jit@jit.aber

  

  Comment on "Perl script to count number of Ns in a multifasta file !"

  If you want to count all 'N' in miltifasta file.  (base) ?  output_2_test git:(master) ? more scaffolds.fasta |  grep -Ho N * | uniq -c      12 draft...

  1579 days ago

• • Rahul Nayak@rahul

  

  Comment on "RGFA: powerful and convenient handling of assembly graphs"

  The Graphical Fragment Assembly (GFA) is a proposed format which allow to describe the product of sequence assembly. This gem implements the proposed specifications for the GFA format described under https://github.com/GFA-spec/GFA-spec/blob/master/GFA-spec.md as close as possible.

  1583 days ago

• • Jit@jit.aber

  

  Comment on "Patterns: a modeling tool dedicated to biological network modeling"

  https://github.com/fbertran/Patterns

  1759 days ago

• • Rahul Nayak@rahul

  

  Comment on "CANU: Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing."

  ➜ bin git:(master) ✗ ./canu usage: canu [-version] [-citation] \ [-correct | -trim | -assemble | -trim-assemble] \ [-s <assembly-specifications-file>] \ -p <assemb...

  2115 days ago

• • Jit@jit.aber

  

  Comment on "LAMSA: fast split read alignment with long approximate matches"

  ➜ LAMSA git:(master) ./lamsa aln Usage: lamsa aln [options] <ref.fa> <read.fa/fq> Algorithm options: -t --thread [INT] Number of threads. [1] -l --seed-len [IN...

  2138 days ago

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